Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases

ABSTRACT: Urea (Ua) is produced in DNA as the result of oxidative damage to thymine and guanine. It was previously reported that Klenow fragment (Kf) exo(−) incorporated dATP opposite Ua, and that DNA polymerase β was blocked by Ua. We report here the following nucleotide incorporations opposite Ua...

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Autores principales: Kawada, Taishu, Kino, Katsuhito, Tokorodani, Kyousuke, Anabuki, Ryuto, Morikawa, Masayuki, Kobayashi, Takanobu, Ohara, Kazuaki, Ohshima, Takayuki, Miyazawa, Hiroshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Short Report
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8845263/
https://www.ncbi.nlm.nih.gov/pubmed/35168664
http://dx.doi.org/10.1186/s41021-022-00236-3
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author Kawada, Taishu
Kino, Katsuhito
Tokorodani, Kyousuke
Anabuki, Ryuto
Morikawa, Masayuki
Kobayashi, Takanobu
Ohara, Kazuaki
Ohshima, Takayuki
Miyazawa, Hiroshi
author_facet Kawada, Taishu
Kino, Katsuhito
Tokorodani, Kyousuke
Anabuki, Ryuto
Morikawa, Masayuki
Kobayashi, Takanobu
Ohara, Kazuaki
Ohshima, Takayuki
Miyazawa, Hiroshi
author_sort Kawada, Taishu
collection PubMed
description ABSTRACT: Urea (Ua) is produced in DNA as the result of oxidative damage to thymine and guanine. It was previously reported that Klenow fragment (Kf) exo(−) incorporated dATP opposite Ua, and that DNA polymerase β was blocked by Ua. We report here the following nucleotide incorporations opposite Ua by various DNA polymerases: DNA polymerase α, dATP and dGTP (dATP > dGTP); DNA polymerase δ, dATP; DNA polymerase ζ, dATP; Kf exo(−), dATP; Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4), dGTP and dATP (dGTP > dATP); and DNA polymerase η, dCTP, dGTP, dATP, and dTTP (dCTP > dGTP > dATP > dTTP). DNA polymerases β and ε were blocked by Ua. Elongation by DNA polymerases δ and ζ stopped after inserting dATP opposite Ua. Importantly, the elongation efficiency to full-length beyond Ua using DNA polymerase η and Dpo4 were almost the same as that of natural DNA. GRAPHICAL ABSTRACT: [Image: see text] SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s41021-022-00236-3.
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spelling pubmed-88452632022-02-16 Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases Kawada, Taishu Kino, Katsuhito Tokorodani, Kyousuke Anabuki, Ryuto Morikawa, Masayuki Kobayashi, Takanobu Ohara, Kazuaki Ohshima, Takayuki Miyazawa, Hiroshi Genes Environ Short Report ABSTRACT: Urea (Ua) is produced in DNA as the result of oxidative damage to thymine and guanine. It was previously reported that Klenow fragment (Kf) exo(−) incorporated dATP opposite Ua, and that DNA polymerase β was blocked by Ua. We report here the following nucleotide incorporations opposite Ua by various DNA polymerases: DNA polymerase α, dATP and dGTP (dATP > dGTP); DNA polymerase δ, dATP; DNA polymerase ζ, dATP; Kf exo(−), dATP; Sulfolobus solfataricus P2 DNA polymerase IV (Dpo4), dGTP and dATP (dGTP > dATP); and DNA polymerase η, dCTP, dGTP, dATP, and dTTP (dCTP > dGTP > dATP > dTTP). DNA polymerases β and ε were blocked by Ua. Elongation by DNA polymerases δ and ζ stopped after inserting dATP opposite Ua. Importantly, the elongation efficiency to full-length beyond Ua using DNA polymerase η and Dpo4 were almost the same as that of natural DNA. GRAPHICAL ABSTRACT: [Image: see text] SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s41021-022-00236-3. BioMed Central 2022-02-15 /pmc/articles/PMC8845263/ /pubmed/35168664 http://dx.doi.org/10.1186/s41021-022-00236-3 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Short Report
Kawada, Taishu
Kino, Katsuhito
Tokorodani, Kyousuke
Anabuki, Ryuto
Morikawa, Masayuki
Kobayashi, Takanobu
Ohara, Kazuaki
Ohshima, Takayuki
Miyazawa, Hiroshi
Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title_full Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title_fullStr Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title_full_unstemmed Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title_short Analysis of nucleotide insertion opposite urea and translesion synthesis across urea by DNA polymerases
title_sort analysis of nucleotide insertion opposite urea and translesion synthesis across urea by dna polymerases
topic Short Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8845263/
https://www.ncbi.nlm.nih.gov/pubmed/35168664
http://dx.doi.org/10.1186/s41021-022-00236-3
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